Back to Build/check report for BioC 3.19 experimental data
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-05-23 14:51:29 -0400 (Thu, 23 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4751
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 145/430HostnameOS / ArchINSTALLBUILDCHECK
geneLenDataBase 1.40.0  (landing page)
Matthew Young , Nadia Davidson
Snapshot Date: 2024-05-23 07:30:03 -0400 (Thu, 23 May 2024)
git_url: https://git.bioconductor.org/packages/geneLenDataBase
git_branch: RELEASE_3_19
git_last_commit: 95fca4d
git_last_commit_date: 2024-04-30 10:29:33 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    ERROR  

CHECK results for geneLenDataBase on nebbiolo1


To the developers/maintainers of the geneLenDataBase package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: geneLenDataBase
Version: 1.40.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:geneLenDataBase.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings geneLenDataBase_1.40.0.tar.gz
StartedAt: 2024-05-23 11:26:27 -0400 (Thu, 23 May 2024)
EndedAt: 2024-05-23 11:35:07 -0400 (Thu, 23 May 2024)
EllapsedTime: 520.2 seconds
RetCode: 1
Status:   ERROR  
CheckDir: geneLenDataBase.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:geneLenDataBase.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings geneLenDataBase_1.40.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/geneLenDataBase.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘geneLenDataBase/DESCRIPTION’ ... OK
* this is package ‘geneLenDataBase’ version ‘1.40.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘geneLenDataBase’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 100.0Mb
  sub-directories of 1Mb or more:
    data  99.5Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
':::' call which should be '::': ‘GenomicFeatures:::supportedUCSCtables’
  See the note in ?`:::` about the use of this operator.
Missing object imported by a ':::' call: ‘GenomicFeatures:::.UCSC_TXNAME2GENEID_MAPDEFS’
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) unfactor.Rd:21: Lost braces
    21 | As factors are their own type, to remove factors we must convert each level into another type.  This is currently done using "typeless" behaviour: a factor is converted to a numeric vector if this can be done without inducing NAs, otherwise it is coerced using as.character. Currently supported types are: /code{factor}, /code{data.frame} and /code{list}.
       |                                                                                                                                                                                                                                                                                                                        ^
checkRd: (-1) unfactor.Rd:21: Lost braces
    21 | As factors are their own type, to remove factors we must convert each level into another type.  This is currently done using "typeless" behaviour: a factor is converted to a numeric vector if this can be done without inducing NAs, otherwise it is coerced using as.character. Currently supported types are: /code{factor}, /code{data.frame} and /code{list}.
       |                                                                                                                                                                                                                                                                                                                                       ^
checkRd: (-1) unfactor.Rd:21: Lost braces
    21 | As factors are their own type, to remove factors we must convert each level into another type.  This is currently done using "typeless" behaviour: a factor is converted to a numeric vector if this can be done without inducing NAs, otherwise it is coerced using as.character. Currently supported types are: /code{factor}, /code{data.frame} and /code{list}.
       |                                                                                                                                                                                                                                                                                                                                                             ^
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in Rd file 'anoCar1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'anoCar1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'anoCar1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'anoGam1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'anoGam1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'anoGam1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'apiMel1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'apiMel2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'apiMel2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'apiMel2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'aplCal1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau2.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau3.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau4.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau4.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau4.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau4.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'bosTau4.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'braFlo1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'caeJap1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'caePb1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'caePb2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'caeRem2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'caeRem3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'calJac1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'calJac1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'calJac1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'canFam2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cavPor3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cavPor3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cavPor3.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cavPor3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cb1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'cb3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce4.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce4.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce4.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce6.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce6.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce6.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ce6.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ci2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer4.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer4.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer4.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer4.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer4.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer5.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer5.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer5.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer5.vegaGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer5.vegaPseudoGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer6.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer6.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer6.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'danRer6.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm3.nscanPasaGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dm3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dp2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dp2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dp3.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dp3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'dp3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droAna1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droAna1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droAna1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droAna2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droAna2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droEre1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droEre1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droGri1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droGri1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droMoj1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droMoj1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droMoj1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droMoj2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droMoj2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droPer1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droPer1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droSec1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droSec1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droSim1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droSim1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droSim1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droVir1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droVir1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droVir1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droVir2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droVir2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droYak1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droYak1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droYak1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droYak2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'droYak2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab1.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'equCab2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'felCat3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'fr1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'fr1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'fr2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal2.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'galGal3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'gasAcu1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'gasAcu1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.acembly.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.exoniphy.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg16.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.acembly.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.acescan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.ccdsGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.exoniphy.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.vegaGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.vegaPseudoGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg17.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.acembly.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.acescan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.ccdsGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.exoniphy.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.knownGeneOld3.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.sibGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg18.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.ccdsGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.exoniphy.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'hg19.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'loxAfr3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm7.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.ccdsGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.sibGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm8.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.acembly.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.ccdsGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.exoniphy.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'mm9.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom4.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'monDom5.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ornAna1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ornAna1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ornAna1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ornAna1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'oryLat2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'oryLat2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'oryLat2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'oryLat2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'panTro2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'petMar1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'ponAbe2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'priPac1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rheMac2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn3.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.knownGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.sgpGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'rn4.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'sacCer1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'sacCer2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'strPur2.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'taeGut1.xenoRefGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'tetNig1.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'tetNig1.geneid.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'tetNig1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'tetNig1.nscanGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'tetNig2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'xenTro1.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'xenTro2.ensGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'xenTro2.geneSymbol.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'xenTro2.genscan.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

Missing link or links in Rd file 'xenTro2.refGene.LENGTH.Rd':
  ‘downloadLengthFromUCSC’

See section 'Cross-references' in the 'Writing R Extensions' manual.
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... ERROR
Running examples in ‘geneLenDataBase-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: supportedGeneIDs
> ### Title: Supported Gene IDs
> ### Aliases: supportedGeneIDs
> 
> ### ** Examples
> 
> supportedGeneIDs()
Error in load_package_gracefully("txdbmaker", "starting with BioC 3.19, ",  : 
  Could not load package txdbmaker. Is it installed?

  Note that starting with BioC 3.19, calling supportedUCSCtables()
  requires the txdbmaker package. Please install it with:

    BiocManager::install("txdbmaker")
Calls: supportedGeneIDs ... do.call -> do.call -> <Anonymous> -> load_package_gracefully
Execution halted
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 WARNING, 4 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-data-experiment/meat/geneLenDataBase.Rcheck/00check.log’
for details.


Installation output

geneLenDataBase.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL geneLenDataBase
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘geneLenDataBase’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (geneLenDataBase)

Tests output


Example timings

geneLenDataBase.Rcheck/geneLenDataBase-Ex.timings

nameusersystemelapsed
anoCar1.ensGene.LENGTH0.0780.0040.083
anoCar1.genscan.LENGTH0.0450.0040.049
anoCar1.xenoRefGene.LENGTH0.8740.0120.886
anoGam1.ensGene.LENGTH0.0550.0050.061
anoGam1.geneid.LENGTH0.0440.0030.045
anoGam1.genscan.LENGTH0.0390.0040.042
apiMel1.genscan.LENGTH0.0370.0010.038
apiMel2.ensGene.LENGTH0.0870.0030.090
apiMel2.geneid.LENGTH0.050.000.05
apiMel2.genscan.LENGTH0.1080.0040.111
aplCal1.xenoRefGene.LENGTH1.0990.0841.182
bosTau2.geneSymbol.LENGTH0.0400.0000.039
bosTau2.geneid.LENGTH0.2260.0000.226
bosTau2.genscan.LENGTH0.0860.0000.086
bosTau2.refGene.LENGTH0.0410.0000.042
bosTau2.sgpGene.LENGTH0.1090.0030.113
bosTau3.ensGene.LENGTH0.1210.0120.133
bosTau3.geneSymbol.LENGTH0.0380.0040.042
bosTau3.geneid.LENGTH0.1270.0000.126
bosTau3.genscan.LENGTH0.0780.0000.078
bosTau3.refGene.LENGTH0.0360.0000.036
bosTau3.sgpGene.LENGTH0.0980.0000.099
bosTau4.ensGene.LENGTH0.1010.0040.106
bosTau4.geneSymbol.LENGTH0.0370.0000.036
bosTau4.genscan.LENGTH0.0690.0040.073
bosTau4.nscanGene.LENGTH0.0340.0000.034
bosTau4.refGene.LENGTH0.0360.0000.036
braFlo1.xenoRefGene.LENGTH0.4430.0000.442
caeJap1.xenoRefGene.LENGTH0.3980.0080.406
caePb1.xenoRefGene.LENGTH0.4670.0090.476
caePb2.xenoRefGene.LENGTH0.4450.0030.448
caeRem2.xenoRefGene.LENGTH0.3970.0080.405
caeRem3.xenoRefGene.LENGTH0.3650.0040.369
calJac1.genscan.LENGTH0.0940.0040.098
calJac1.nscanGene.LENGTH0.1130.0080.121
calJac1.xenoRefGene.LENGTH0.7820.0080.791
canFam1.ensGene.LENGTH0.2190.0000.219
canFam1.geneSymbol.LENGTH0.0050.0010.006
canFam1.genscan.LENGTH0.0600.0030.063
canFam1.nscanGene.LENGTH0.0630.0000.063
canFam1.refGene.LENGTH0.0020.0040.006
canFam1.xenoRefGene.LENGTH0.5610.0080.569
canFam2.ensGene.LENGTH0.0910.0000.092
canFam2.geneSymbol.LENGTH0.0050.0000.006
canFam2.genscan.LENGTH0.0570.0000.058
canFam2.nscanGene.LENGTH0.0630.0000.063
canFam2.refGene.LENGTH0.0050.0000.006
canFam2.xenoRefGene.LENGTH0.5580.0040.561
cavPor3.ensGene.LENGTH0.0860.0000.086
cavPor3.genscan.LENGTH0.1020.0000.102
cavPor3.nscanGene.LENGTH0.1300.0080.137
cavPor3.xenoRefGene.LENGTH0.5690.0110.581
cb1.xenoRefGene.LENGTH0.3820.0000.382
cb3.xenoRefGene.LENGTH0.3280.0030.332
ce2.geneSymbol.LENGTH0.0700.0000.069
ce2.geneid.LENGTH0.0550.0040.059
ce2.refGene.LENGTH0.0690.0000.069
ce4.geneSymbol.LENGTH0.0710.0090.080
ce4.refGene.LENGTH0.0550.0100.065
ce4.xenoRefGene.LENGTH0.0770.0080.085
ce6.ensGene.LENGTH0.1060.0000.106
ce6.geneSymbol.LENGTH0.0740.0000.074
ce6.refGene.LENGTH0.0670.0000.067
ce6.xenoRefGene.LENGTH0.0840.0000.084
ci1.geneSymbol.LENGTH0.0060.0000.006
ci1.refGene.LENGTH0.0050.0000.005
ci1.xenoRefGene.LENGTH0.1790.0000.179
ci2.ensGene.LENGTH0.2010.0120.212
ci2.geneSymbol.LENGTH0.0020.0040.005
ci2.refGene.LENGTH0.0050.0000.005
ci2.xenoRefGene.LENGTH0.2730.0000.273
danRer3.ensGene.LENGTH0.0950.0000.095
danRer3.geneSymbol.LENGTH0.0480.0080.056
danRer3.refGene.LENGTH0.050.000.05
danRer4.ensGene.LENGTH0.1110.0000.111
danRer4.geneSymbol.LENGTH0.0530.0000.053
danRer4.genscan.LENGTH0.0630.0000.063
danRer4.nscanGene.LENGTH0.0930.0000.093
danRer4.refGene.LENGTH0.0530.0000.053
danRer5.ensGene.LENGTH0.1210.0000.121
danRer5.geneSymbol.LENGTH0.0510.0000.051
danRer5.refGene.LENGTH0.0470.0000.047
danRer5.vegaGene.LENGTH0.0440.0040.048
danRer5.vegaPseudoGene.LENGTH0.0020.0000.002
danRer6.ensGene.LENGTH0.1070.0000.107
danRer6.geneSymbol.LENGTH0.050.000.05
danRer6.refGene.LENGTH0.0430.0040.047
danRer6.xenoRefGene.LENGTH0.4910.0080.499
dm1.geneSymbol.LENGTH0.0640.0000.064
dm1.genscan.LENGTH0.0210.0040.025
dm1.refGene.LENGTH0.0590.0000.059
dm2.geneSymbol.LENGTH0.0640.0000.064
dm2.geneid.LENGTH0.0380.0000.038
dm2.genscan.LENGTH0.0240.0000.024
dm2.nscanGene.LENGTH0.0510.0000.051
dm2.refGene.LENGTH0.0550.0050.061
dm3.geneSymbol.LENGTH0.0680.0040.071
dm3.nscanPasaGene.LENGTH0.0490.0030.052
dm3.refGene.LENGTH0.0660.0010.067
dp2.genscan.LENGTH0.0310.0030.033
dp2.xenoRefGene.LENGTH0.1950.0000.195
dp3.geneid.LENGTH0.040.000.04
dp3.genscan.LENGTH0.0270.0000.027
dp3.xenoRefGene.LENGTH0.1080.0000.108
droAna1.geneid.LENGTH0.0710.0000.071
droAna1.genscan.LENGTH0.0230.0000.023
droAna1.xenoRefGene.LENGTH0.1980.0000.198
droAna2.genscan.LENGTH0.050.000.05
droAna2.xenoRefGene.LENGTH0.3950.0040.399
droEre1.genscan.LENGTH0.030.000.03
droEre1.xenoRefGene.LENGTH0.2490.0000.249
droGri1.genscan.LENGTH0.0360.0050.041
droGri1.xenoRefGene.LENGTH0.2660.0020.268
droMoj1.geneid.LENGTH0.1270.0000.127
droMoj1.genscan.LENGTH0.0570.0000.057
droMoj1.xenoRefGene.LENGTH0.2080.0000.208
droMoj2.genscan.LENGTH0.0370.0000.037
droMoj2.xenoRefGene.LENGTH0.2530.0040.257
droPer1.genscan.LENGTH0.0370.0040.041
droPer1.xenoRefGene.LENGTH0.2600.0040.264
droSec1.genscan.LENGTH0.030.000.03
droSec1.xenoRefGene.LENGTH0.2490.0040.253
droSim1.geneid.LENGTH0.0460.0000.046
droSim1.genscan.LENGTH0.0220.0090.032
droSim1.xenoRefGene.LENGTH0.2200.0140.233
droVir1.geneid.LENGTH0.3140.0160.330
droVir1.genscan.LENGTH0.0440.0000.044
droVir1.xenoRefGene.LENGTH0.2240.0000.224
droVir2.genscan.LENGTH0.0340.0040.038
droVir2.xenoRefGene.LENGTH0.2430.0000.243
droYak1.geneid.LENGTH0.0440.0000.044
droYak1.genscan.LENGTH0.030.000.03
droYak1.xenoRefGene.LENGTH0.1930.0040.197
droYak2.genscan.LENGTH0.0250.0040.029
droYak2.xenoRefGene.LENGTH0.2420.0070.249
equCab1.geneSymbol.LENGTH0.0050.0010.006
equCab1.geneid.LENGTH0.0890.0030.091
equCab1.nscanGene.LENGTH0.0380.0040.043
equCab1.refGene.LENGTH0.0050.0000.005
equCab1.sgpGene.LENGTH0.0730.0000.073
equCab2.ensGene.LENGTH0.0930.0030.097
equCab2.geneSymbol.LENGTH0.0070.0000.007
equCab2.nscanGene.LENGTH0.0530.0000.053
equCab2.refGene.LENGTH0.0030.0040.007
equCab2.xenoRefGene.LENGTH0.5320.0040.536
felCat3.ensGene.LENGTH0.0980.0040.102
felCat3.geneSymbol.LENGTH0.0050.0000.004
felCat3.geneid.LENGTH1.3640.0841.448
felCat3.genscan.LENGTH0.1120.0000.112
felCat3.nscanGene.LENGTH0.0880.0000.089
felCat3.refGene.LENGTH0.0030.0010.004
felCat3.sgpGene.LENGTH0.1430.0030.146
felCat3.xenoRefGene.LENGTH1.0460.0031.050
fr1.ensGene.LENGTH0.0760.0000.076
fr1.genscan.LENGTH0.060.000.06
fr2.ensGene.LENGTH0.1190.0080.126
galGal2.ensGene.LENGTH0.0530.0040.057
galGal2.geneSymbol.LENGTH0.0110.0050.016
galGal2.geneid.LENGTH0.0370.0030.040
galGal2.genscan.LENGTH0.0470.0050.052
galGal2.refGene.LENGTH0.0130.0030.015
galGal2.sgpGene.LENGTH0.0430.0000.043
galGal3.ensGene.LENGTH0.0650.0080.073
galGal3.geneSymbol.LENGTH0.0170.0000.017
galGal3.genscan.LENGTH0.050.000.05
galGal3.nscanGene.LENGTH0.0720.0040.075
galGal3.refGene.LENGTH0.0140.0000.014
galGal3.xenoRefGene.LENGTH0.4450.0000.445
gasAcu1.ensGene.LENGTH0.0920.0000.092
gasAcu1.nscanGene.LENGTH0.0960.0030.100
hg16.acembly.LENGTH0.3550.0000.355
hg16.ensGene.LENGTH0.0750.0000.075
hg16.exoniphy.LENGTH0.2520.0070.260
hg16.geneSymbol.LENGTH0.1090.0000.109
hg16.geneid.LENGTH0.050.000.05
hg16.genscan.LENGTH0.0620.0080.069
hg16.knownGene.LENGTH0.1310.0000.131
hg16.refGene.LENGTH0.1020.0000.102
hg16.sgpGene.LENGTH0.0570.0000.057
hg17.acembly.LENGTH0.8860.0280.915
hg17.acescan.LENGTH0.0110.0000.011
hg17.ccdsGene.LENGTH0.0190.0040.023
hg17.ensGene.LENGTH0.1000.0040.103
hg17.exoniphy.LENGTH0.3990.0080.407
hg17.geneSymbol.LENGTH0.1020.0000.102
hg17.geneid.LENGTH0.0760.0000.076
hg17.genscan.LENGTH0.0610.0000.061
hg17.knownGene.LENGTH0.1050.0000.105
hg17.refGene.LENGTH0.0920.0000.092
hg17.sgpGene.LENGTH0.0680.0000.067
hg17.vegaGene.LENGTH0.040.000.04
hg17.vegaPseudoGene.LENGTH0.0170.0000.018
hg17.xenoRefGene.LENGTH0.1880.0000.188
hg18.acembly.LENGTH0.5590.0200.580
hg18.acescan.LENGTH0.0120.0000.013
hg18.ccdsGene.LENGTH0.0260.0120.037
hg18.ensGene.LENGTH0.1930.0000.194
hg18.exoniphy.LENGTH0.4300.0110.442
hg18.geneSymbol.LENGTH0.1070.0000.107
hg18.geneid.LENGTH0.0820.0000.083
hg18.genscan.LENGTH0.0640.0000.064
hg18.knownGene.LENGTH1.2690.1121.382
hg18.knownGeneOld3.LENGTH0.0650.0000.065
hg18.refGene.LENGTH0.0920.0000.092
hg18.sgpGene.LENGTH0.0740.0000.074
hg18.sibGene.LENGTH0.3180.0040.322
hg18.xenoRefGene.LENGTH0.3120.0080.321
hg19.ccdsGene.LENGTH0.0370.0040.040
hg19.ensGene.LENGTH0.2720.0000.272
hg19.exoniphy.LENGTH0.3980.0000.398
hg19.geneSymbol.LENGTH0.0970.0000.097
hg19.knownGene.LENGTH0.1640.0040.167
hg19.nscanGene.LENGTH0.1330.0090.142
hg19.refGene.LENGTH0.0940.0020.096
hg19.xenoRefGene.LENGTH0.3290.0010.330
loxAfr3.xenoRefGene.LENGTH0.6910.0030.693
mm7.ensGene.LENGTH0.1090.0040.112
mm7.geneSymbol.LENGTH0.0870.0000.087
mm7.geneid.LENGTH0.0720.0120.084
mm7.genscan.LENGTH0.0630.0010.064
mm7.knownGene.LENGTH0.0940.0020.096
mm7.refGene.LENGTH0.0820.0000.083
mm7.sgpGene.LENGTH0.0780.0000.078
mm7.xenoRefGene.LENGTH0.2850.0000.285
mm8.ccdsGene.LENGTH0.0220.0000.022
mm8.ensGene.LENGTH0.0710.0040.074
mm8.geneSymbol.LENGTH0.0840.0000.084
mm8.geneid.LENGTH0.0730.0000.073
mm8.genscan.LENGTH0.0560.0000.056
mm8.knownGene.LENGTH0.0880.0000.088
mm8.nscanGene.LENGTH0.0590.0000.059
mm8.refGene.LENGTH0.0800.0000.081
mm8.sgpGene.LENGTH0.0720.0040.076
mm8.sibGene.LENGTH0.2350.0040.239
mm8.xenoRefGene.LENGTH0.3070.0120.318
mm9.acembly.LENGTH0.2920.0040.296
mm9.ccdsGene.LENGTH0.030.000.03
mm9.ensGene.LENGTH0.1370.0040.140
mm9.exoniphy.LENGTH0.4030.0160.419
mm9.geneSymbol.LENGTH0.0850.0040.088
mm9.geneid.LENGTH0.0850.0000.085
mm9.genscan.LENGTH0.0620.0000.062
mm9.knownGene.LENGTH0.1130.0080.120
mm9.nscanGene.LENGTH0.0590.0070.066
mm9.refGene.LENGTH0.0810.0010.083
mm9.sgpGene.LENGTH0.0830.0030.085
mm9.xenoRefGene.LENGTH0.3350.0080.344
monDom1.genscan.LENGTH0.0640.0040.069
monDom4.ensGene.LENGTH0.0750.0040.078
monDom4.geneSymbol.LENGTH0.0040.0000.004
monDom4.genscan.LENGTH0.0580.0000.058
monDom4.nscanGene.LENGTH0.060.000.06
monDom4.refGene.LENGTH0.0000.0030.004
monDom4.xenoRefGene.LENGTH0.3430.0040.347
monDom5.ensGene.LENGTH0.1040.0040.107
monDom5.geneSymbol.LENGTH0.0030.0000.004
monDom5.genscan.LENGTH0.0540.0030.058
monDom5.nscanGene.LENGTH0.3880.0080.396
monDom5.refGene.LENGTH0.0040.0000.004
monDom5.xenoRefGene.LENGTH0.5290.0080.538
ornAna1.ensGene.LENGTH0.0910.0000.091
ornAna1.geneSymbol.LENGTH0.0020.0000.003
ornAna1.refGene.LENGTH0.0020.0000.002
ornAna1.xenoRefGene.LENGTH0.4740.0200.494
oryLat2.ensGene.LENGTH0.0750.0080.084
oryLat2.geneSymbol.LENGTH0.0040.0000.004
oryLat2.refGene.LENGTH0.0030.0000.004
oryLat2.xenoRefGene.LENGTH0.4540.0040.458
panTro1.ensGene.LENGTH0.0880.0190.108
panTro1.geneid.LENGTH0.0520.0000.052
panTro1.genscan.LENGTH0.0620.0000.062
panTro1.xenoRefGene.LENGTH0.1020.0040.106
panTro2.ensGene.LENGTH0.1130.0000.113
panTro2.geneSymbol.LENGTH0.0960.0000.096
panTro2.genscan.LENGTH0.0620.0000.061
panTro2.nscanGene.LENGTH0.0630.0000.062
panTro2.refGene.LENGTH0.0980.0000.098
panTro2.xenoRefGene.LENGTH0.4420.0080.449
petMar1.xenoRefGene.LENGTH0.2350.0040.239
ponAbe2.ensGene.LENGTH0.0830.0040.087
ponAbe2.geneSymbol.LENGTH0.0130.0000.012
ponAbe2.genscan.LENGTH0.0600.0040.064
ponAbe2.nscanGene.LENGTH0.0580.0040.061
ponAbe2.refGene.LENGTH0.0120.0000.011
ponAbe2.xenoRefGene.LENGTH0.5610.0080.568
priPac1.xenoRefGene.LENGTH0.3200.0040.323
rheMac2.ensGene.LENGTH0.1240.0000.124
rheMac2.geneSymbol.LENGTH0.0050.0000.005
rheMac2.geneid.LENGTH0.0740.0000.074
rheMac2.nscanGene.LENGTH0.0550.0050.061
rheMac2.refGene.LENGTH0.0030.0020.006
rheMac2.sgpGene.LENGTH0.0710.0000.071
rheMac2.xenoRefGene.LENGTH0.4440.0000.444
rn3.ensGene.LENGTH0.1020.0000.102
rn3.geneSymbol.LENGTH0.0530.0000.053
rn3.geneid.LENGTH0.0530.0000.052
rn3.genscan.LENGTH0.0630.0000.063
rn3.knownGene.LENGTH0.0210.0040.024
rn3.nscanGene.LENGTH0.0600.0000.061
rn3.refGene.LENGTH0.0500.0000.051
rn3.sgpGene.LENGTH0.0570.0010.059
rn3.xenoRefGene.LENGTH0.4950.0020.497
rn4.ensGene.LENGTH0.1270.0000.127
rn4.geneSymbol.LENGTH0.0530.0000.053
rn4.geneid.LENGTH0.0810.0030.085
rn4.genscan.LENGTH0.0610.0010.060
rn4.knownGene.LENGTH0.0250.0000.024
rn4.nscanGene.LENGTH0.0610.0040.065
rn4.refGene.LENGTH0.0490.0000.049
rn4.sgpGene.LENGTH0.0790.0030.084
rn4.xenoRefGene.LENGTH0.3030.0000.303
sacCer1.ensGene.LENGTH0.0190.0000.019
sacCer2.ensGene.LENGTH0.0170.0000.017
strPur1.geneSymbol.LENGTH0.0010.0030.004
strPur1.genscan.LENGTH0.0610.0040.065
strPur1.refGene.LENGTH0.0040.0000.005
strPur1.xenoRefGene.LENGTH0.6360.0200.656
strPur2.geneSymbol.LENGTH0.0040.0000.004
strPur2.genscan.LENGTH0.1080.0000.108
strPur2.refGene.LENGTH0.0040.0000.004
strPur2.xenoRefGene.LENGTH0.5730.0000.573